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(-) Description

Title :  CRYSTAL STRUCTURE OF THE FAB FRAGMENT FROM THE HUMAN MYELOMA IMMUNOGLOBULIN IGG HIL AT 1.8 ANGSTROMS RESOLUTION
 
Authors :  F. A. Saul, R. J. Poljak
Date :  23 Mar 92  (Deposition) - 31 Oct 93  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Immunoglobulin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. K. Strong, R. Campbell, D. R. Rose, G. A. Petsko, J. Sharon, M. N. Margolies
Three-Dimensional Structure Of Murine Anti-P-Azophenylarsonate Fab 36-71. 1. X-Ray Crystallography, Site-Directed Mutagenesis, And Modeling Of The Complex With Hapten.
Biochemistry V. 30 3739 1991
PubMed-ID: 2015229  |  Reference-DOI: 10.1021/BI00229A022
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IGG1-LAMBDA HIL FAB (LIGHT CHAIN)
    Chains: A, C
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - IGG1-LAMBDA HIL FAB (HEAVY CHAIN)
    Chains: B, D
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 8FAB)

(-) Sites  (0, 0)

(no "Site" information available for 8FAB)

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:22 -A:87
2A:134 -A:193
3B:22 -B:96
4B:148 -B:204
5C:22 -C:87
6C:134 -C:193
7D:22 -D:96
8D:148 -D:204

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Tyr A:140 -Pro A:141
2Phe B:154 -Pro B:155
3Glu B:156 -Pro B:157
4Tyr C:140 -Pro C:141
5Phe D:154 -Pro D:155
6Glu D:156 -Pro D:157

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 8FAB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 8FAB)

(-) Exons   (0, 0)

(no "Exon" information available for 8FAB)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:206
                                                                                                                                                                                                                                              
               SCOP domains d8faba1 A:3-105 Immunoglobulin light chain lambda variable domain, VL-lambda                           d8faba2 A:106-208 Immunoglobulin light chain lambda constant domain, CL-lambda                          SCOP domains
               CATH domains 8fabA01 A:3-107 Immunoglobulins                                                                          8fabA02 A:108-208 Immunoglobulins                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee.....eeeeee..hhhhh..eeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeeeee..eeee...eeeee........eeeee..hhhhhhh..eeeeeeeeee.....eeeeee..eee...eee...ee.....eeeeeeeeehhhhhhh...eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 8fab A   3 ELTQPPSVSVSPGQTARITCSANALPNQYAYWYQQKPGRAPVMVIYKDTQRPSGIPQRFSSSTSGTTVTLTISGVQAEDEADYYCQAWDNSASIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAP 208
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202      


Chain B from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains d8fabb1 B:1-121 Immunoglobulin heavy chain variable domain, VH                                                           d8fabb2 B:122-223 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                SCOP domains
               CATH domains 8fabB01 B:1-121 Immunoglobulins                                                                                          8fabB02 B:122-222 Immunoglobulins                                                            - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeee...........ee...eeeee........eeeee...eeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeee..hhhhhh..eeeeeehhhheeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 8fab B   1 AVKLVQAGGGVVQPGRSLRLSCIASGFTFSNYGMHWVRQAPGKGLEWVAVIWYNGSRTYYGDSVKGRFTISRDNSKRTLYMQMNSLRTEDTAVYYCARDPDILTAFSFDYWGQGVLVTVSSASTKGPSVFPLAPTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKS 223
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   ||  148       158       168       178       188       198       208       218     
                                                                                                                                                               134|                                                                                
                                                                                                                                                                143                                                                                


Chain C from PDB  Type:PROTEIN  Length:206
                                                                                                                                                                                                                                              
               SCOP domains d8fabc1 C:3-105 Immunoglobulin light chain lambda variable domain, VL-lambda                           d8fabc2 C:106-208 Immunoglobulin light chain lambda constant domain, CL-lambda                          SCOP domains
               CATH domains 8fabC01 C:3-107 Immunoglobulins                                                                          8fabC02 C:108-208 Immunoglobulins                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee.....eeeeee..hhhhh..eeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeeeee..eeee...eeeee........eeeee..hhhhhhh..eeeeeeeeee.....eeeeee..eee...eee...ee.....eeeeeeeeehhhhhhh...eeeeeee..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 8fab C   3 ELTQPPSVSVSPGQTARITCSANALPNQYAYWYQQKPGRAPVMVIYKDTQRPSGIPQRFSSSTSGTTVTLTISGVQAEDEADYYCQAWDNSASIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAP 208
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202      


Chain D from PDB  Type:PROTEIN  Length:222
                                                                                                                                                                                                                                                              
               SCOP domains d8fabd1 D:1-121 Immunoglobulin heavy chain variable domain, VH                                                           d8fabd2 D:122-222 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                       SCOP domains
               CATH domains 8fabD01 D:1-121 Immunoglobulins                                                                                          8fabD02 D:122-221 Immunoglobulins                                                                   - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeee...........ee...eeeee........eeeee...hhhhh..eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhhhh...eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 8fab D   1 AVKLVQAGGGVVQPGRSLRLSCIASGFTFSNYGMHWVRQAPGKGLEWVAVIWYNGSRTYYGDSVKGRFTISRDNSKRTLYMQMNSLRTEDTAVYYCARDPDILTAFSFDYWGQGVLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (4, 8)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 8)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)
(-)
Architecture: Sandwich (5577)
(-)
Topology: Immunoglobulin-like (3897)
(-)
Homologous Superfamily: Immunoglobulins (2282)
(-)
Human (Homo sapiens) (912)
1a8fabD02D:122-221
1b8fabB02B:122-222
1c8fabA01A:3-107
1d8fabC01C:3-107
1e8fabA02A:108-208
1f8fabC02C:108-208
1g8fabB01B:1-121
1h8fabD01D:1-121

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 8FAB)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 8FAB)

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  Cis Peptide Bonds
    Glu B:156 - Pro B:157   [ RasMol ]  
    Glu D:156 - Pro D:157   [ RasMol ]  
    Phe B:154 - Pro B:155   [ RasMol ]  
    Phe D:154 - Pro D:155   [ RasMol ]  
    Tyr A:140 - Pro A:141   [ RasMol ]  
    Tyr C:140 - Pro C:141   [ RasMol ]  
 
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  8fab
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 Related Entries

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